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Setting up an experiment

Hardware set up

  1. Ensure the LEDs and photodiodes are placed deep in their respective pockets, and the caps are placed on the ends of the pockets.

Before starting any activities, it's useful to run a self test to confirm that your Pioreactors are all working as expected. How to run a self-test.

Creating an experiment

  1. To create a new experiment, use the "New experiment" button at the top of the Experiment Overview page.

  1. On the next screen, enter your new experiment name, unique from prior experiments. This cannot be changed. Enter optional metadata about your experiment. The description can be changed later. Click "Create" when done.

  1. (Optional) If working with more than one Pioreactor in your cluster, it's useful to assign experiment-specific labels to them. These labels show up in the user interface, and make progress checking and updating easier. The labels can be changed later. Click "Assign" when done.

Use these labels to keep track of treatments on multiple vials. For example, labels '15C', '25C' and '35C' can be used to differentiate temperature treatments. These labels will be shown on graphs generated in the Overview page on the website.

The next pages will guide you through setting up heating, stirring and optical density reading for your Pioreactor.

Alternative: Start activities from the Pioreactors page.

On the Pioreactors page, you should see at least one Pioreactor under Active Pioreactors. Using the "Manage" button, you can start an activity. Once started, jobs can also be paused (and then resumed) and stopped.

The typical sequence of activities to start is:

  1. Stirring
  2. Temperature automation
  3. Optical density
  4. Growth Rate
  5. Any other activities. Any of the automations can be started, or custom jobs you've added to your Pioreactor.